Biological Assembly 1  

 3D View: Structure | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Macromolecule Content

• Total Structure Weight: 103.30 kDa 
• Atom Count: 7042 
• Modelled Residue Count: 164 
• Deposited Residue Count: 164 
• Unique protein chains: 1

2MLR

Membrane Bilayer complex with Matrix Metalloproteinase-12 at its Alpha-face

• DOI: 10.2210/pdb2MLR/pdb

• Classification: HYDROLASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2014-03-04 Released: 2014-12-03 
• Deposition Author(s): Koppisetti, R.K., Fulcher, Y.G., Prior, S.H., Lenoir, M., Overduin, M., Van Doren, S.R.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 14 
• Conformers Submitted: 14 
• Selection Criteria: structures with the lowest energy 

Literature

Ambidextrous binding of cell and membrane bilayers by soluble matrix metalloproteinase-12.

Koppisetti, R.K., Fulcher, Y.G., Jurkevich, A., Prior, S.H., Xu, J., Lenoir, M., Overduin, M., Van Doren, S.R.

(2014) Nat Commun 5: 5552-5552

• PubMed: 25412686 
• DOI: 10.1038/ncomms6552
• Primary Citation of Related Structures:  
  2MLS, 2MLR


• PubMed Abstract: 
  

Matrix metalloproteinases (MMPs) regulate tissue remodelling, inflammation and disease progression. Some soluble MMPs are inexplicably active near cell surfaces. Here we demonstrate the binding of MMP-12 directly to bilayers and cellular membranes using paramagnetic NMR and fluorescence. Opposing sides of the catalytic domain engage spin-labelled membrane mimics. Loops project from the β-sheet interface to contact the phospholipid bilayer with basic and hydrophobic residues. The distal membrane interface comprises loops on the other side of the catalytic cleft. Both interfaces mediate MMP-12 association with vesicles and cell membranes. MMP-12 binds plasma membranes and is internalized to hydrophobic perinuclear features, the nuclear membrane and inside the nucleus within minutes. While binding of TIMP-2 to MMP-12 hinders membrane interactions beside the active site, TIMP-2-inhibited MMP-12 binds vesicles and cells, suggesting compensatory rotation of its membrane approaches. MMP-12 association with diverse cell membranes may target its activities to modulate innate immune responses and inflammation.

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Organizational Affiliation: 

Department of Biochemistry, University of Missouri, 117 Schweitzer Hall, Columbia, Missouri 65211, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Macrophage metalloelastase	A	164	Homo sapiens	Mutation(s): 1  Gene Names: MMP12, HME EC: 3.4.24.65
Find proteins for P39900 (Homo sapiens) Explore P39900  Go to UniProtKB:  P39900
NIH Common Fund Data Resources
PHAROS:  P39900 GTEx:  ENSG00000262406

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
PX4	A	1,2-DIMYRISTOYL-SN-GLYCERO-3-PHOSPHOCHOLINE C36 H73 N O8 P CITHEXJVPOWHKC-UUWRZZSWSA-O
ZN	A	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N
CA	A	CALCIUM ION Ca BHPQYMZQTOCNFJ-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 14 
• Conformers Submitted: 14 
• Selection Criteria: structures with the lowest energy 
• OLDERADO: 2MLR Olderado

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2014-03-04 
• Released Date: 2014-12-03 
Deposition Author(s): Koppisetti, R.K., Fulcher, Y.G., Prior, S.H., Lenoir, M., Overduin, M., Van Doren, S.R.

Revision History  

• Version 1.0: 2014-12-03
  Type: Initial release
  
• Version 1.1: 2014-12-10
  Changes: Database references